WO2002079491A3 - Method for correlating gene expression profiles with protein expression profiles - Google Patents

Method for correlating gene expression profiles with protein expression profiles Download PDF

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Publication number
WO2002079491A3
WO2002079491A3 PCT/US2002/004467 US0204467W WO02079491A3 WO 2002079491 A3 WO2002079491 A3 WO 2002079491A3 US 0204467 W US0204467 W US 0204467W WO 02079491 A3 WO02079491 A3 WO 02079491A3
Authority
WO
WIPO (PCT)
Prior art keywords
expression profiles
protein expression
gene expression
correlating gene
protein
Prior art date
Application number
PCT/US2002/004467
Other languages
French (fr)
Other versions
WO2002079491A2 (en
Inventor
William E Rich
T William Hutchens
Original Assignee
Ciphergen Biosystems Inc
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Ciphergen Biosystems Inc filed Critical Ciphergen Biosystems Inc
Priority to CA002438391A priority Critical patent/CA2438391A1/en
Priority to KR10-2003-7010801A priority patent/KR20040054609A/en
Priority to EP02741639.5A priority patent/EP1576183A3/en
Priority to JP2002578492A priority patent/JP2005507235A/en
Priority to AU2002314715A priority patent/AU2002314715B2/en
Publication of WO2002079491A2 publication Critical patent/WO2002079491A2/en
Publication of WO2002079491A3 publication Critical patent/WO2002079491A3/en

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Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6809—Methods for determination or identification of nucleic acids involving differential detection
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
    • Y10T—TECHNICAL SUBJECTS COVERED BY FORMER US CLASSIFICATION
    • Y10T436/00—Chemistry: analytical and immunological testing
    • Y10T436/24—Nuclear magnetic resonance, electron spin resonance or other spin effects or mass spectrometry

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  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Zoology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Analytical Chemistry (AREA)
  • Microbiology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Molecular Biology (AREA)
  • Immunology (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Biochemistry (AREA)
  • Physics & Mathematics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Other Investigation Or Analysis Of Materials By Electrical Means (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)

Abstract

The present invention relates to methods for correlating gene and protein expression in a cell. The method includes the generation of biological profiles based upon mRNA expression and the identification of physio-chemical properties of polypeptides, such that gene expression and protein expression may be correlated.
PCT/US2002/004467 2001-02-16 2002-02-15 Method for correlating gene expression profiles with protein expression profiles WO2002079491A2 (en)

Priority Applications (5)

Application Number Priority Date Filing Date Title
CA002438391A CA2438391A1 (en) 2001-02-16 2002-02-15 Method for correlating gene expression profiles with protein expression profiles
KR10-2003-7010801A KR20040054609A (en) 2001-02-16 2002-02-15 Method for correlating gene expression profiles with protein expression profiles
EP02741639.5A EP1576183A3 (en) 2001-02-16 2002-02-15 Method for correlating gene expression profiles with protein expression profiles
JP2002578492A JP2005507235A (en) 2001-02-16 2002-02-15 Methods for correlating gene expression profiles with protein expression profiles
AU2002314715A AU2002314715B2 (en) 2001-02-16 2002-02-15 Method for correlating gene expression profiles with protein expression profiles

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US26977201P 2001-02-16 2001-02-16
US60/269,772 2001-02-16

Publications (2)

Publication Number Publication Date
WO2002079491A2 WO2002079491A2 (en) 2002-10-10
WO2002079491A3 true WO2002079491A3 (en) 2005-09-29

Family

ID=23028598

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2002/004467 WO2002079491A2 (en) 2001-02-16 2002-02-15 Method for correlating gene expression profiles with protein expression profiles

Country Status (7)

Country Link
US (1) US7299134B2 (en)
JP (1) JP2005507235A (en)
KR (1) KR20040054609A (en)
CN (1) CN1636068A (en)
AU (1) AU2002314715B2 (en)
CA (1) CA2438391A1 (en)
WO (1) WO2002079491A2 (en)

Families Citing this family (22)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
NZ516848A (en) * 1997-06-20 2004-03-26 Ciphergen Biosystems Inc Retentate chromatography apparatus with applications in biology and medicine
BR0111742A (en) * 2000-06-19 2004-02-03 Correlogic Systems Inc Heuristic Classification Method
AU2001280581A1 (en) 2000-07-18 2002-01-30 Correlogic Systems, Inc. A process for discriminating between biological states based on hidden patterns from biological data
AR040711A1 (en) * 2002-07-29 2005-04-13 Us Agriculture A METHOD FOR QUALITY VERIFICATION / QUALITY CONTROL FOR HIGH PERFORMANCE BIO TEST PROCESS
AU2004261222A1 (en) * 2003-08-01 2005-02-10 Correlogic Systems, Inc. Multiple high-resolution serum proteomic features for ovarian cancer detection
CA2547861A1 (en) * 2003-12-05 2005-06-23 Ciphergen Biosystems, Inc. Serum biomarkers for chagas disease
CA2548842A1 (en) * 2003-12-11 2005-07-07 Correlogic Systems, Inc. Method of diagnosing biological states through the use of a centralized, adaptive model, and remote sample processing
US7749716B2 (en) * 2004-05-18 2010-07-06 Vermilllion, Inc. Methods of detecting a fragment of neurosecretory protein VGF for diagnosing alzheimer's disease
US20060063161A1 (en) * 2004-09-22 2006-03-23 Ciphergen Biosystems, Inc. Detecting RNAi using SELDI mass spectrometry
US20070003996A1 (en) * 2005-02-09 2007-01-04 Hitt Ben A Identification of bacteria and spores
US20080312514A1 (en) * 2005-05-12 2008-12-18 Mansfield Brian C Serum Patterns Predictive of Breast Cancer
WO2008100941A2 (en) * 2007-02-12 2008-08-21 Correlogic Systems Inc. A method for calibrating an analytical instrument
BRPI0813002A2 (en) 2007-06-29 2017-05-02 Correlogic Systems Inc predictive markers for ovarian cancer
KR101679869B1 (en) * 2008-04-05 2016-11-25 싱글 셀 테크놀로지, 아이엔씨. Method of screening single cells for the production of biologically active agents
US8975019B2 (en) * 2009-10-19 2015-03-10 University Of Massachusetts Deducing exon connectivity by RNA-templated DNA ligation/sequencing
JP7065609B6 (en) 2014-10-24 2022-06-06 コーニンクレッカ フィリップス エヌ ヴェ Medical prognosis and prediction of therapeutic response using multiple cellular signaling pathway activities
CA2965442A1 (en) 2014-10-24 2016-04-28 Koninklijke Philips N.V. Assessment of tgf-b cellular signaling pathway activity using mathematical modelling of target gene expression
ES2838923T3 (en) 2014-10-24 2021-07-02 Koninklijke Philips Nv Medical prognosis and prediction of response to treatment using multiple activities of the cell signaling pathway
ES2861400T3 (en) 2015-08-14 2021-10-06 Koninklijke Philips Nv Evaluation of the activity of the NFkB cell signaling pathway using mathematical models of target gene expression
EP3461915A1 (en) 2017-10-02 2019-04-03 Koninklijke Philips N.V. Assessment of jak-stat1/2 cellular signaling pathway activity using mathematical modelling of target gene expression
EP3502279A1 (en) 2017-12-20 2019-06-26 Koninklijke Philips N.V. Assessment of mapk-ap 1 cellular signaling pathway activity using mathematical modelling of target gene expression
CN110609078B (en) * 2019-09-20 2022-03-11 南京谱利健生物技术有限公司 Method for detecting protein phosphorylation and acetylglucosamine saccharification correlation effect

Family Cites Families (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6593084B2 (en) 1998-10-13 2003-07-15 Robert E. Bird Carcinogen assay
AU2025400A (en) 1998-11-17 2000-06-05 Proteo Tools Separation, screening, and identification of biological targets
US9335328B2 (en) 2000-02-03 2016-05-10 Instant Medical Diagnostics, Llc Method and apparatus for signal transduction pathway profiling

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
AEBERSOLD R. AND MANN M.: "Mass Spectrometry-Based Proteomics", NATURE, vol. 422, 13 March 2003 (2003-03-13), pages 198 - 207, XP002989148 *
GRIFFIN T.J. AND AEBERSOLD R.: "Advances in Proteome Analysis by Mass Spectrometry", THE JOURNAL OF BIOLOGICAL CHEMISTRY, vol. 276, no. 49, 7 December 2001 (2001-12-07), pages 45497 - 45500, XP002974297 *
HUBER L.A.: "Is Proteomics Heading in the Wrong Direction?", MOLECULAR AND CELL BIOLOGY, vol. 4, January 2003 (2003-01-01), pages 74 - 80, XP002989147 *
See also references of EP1576183A4 *

Also Published As

Publication number Publication date
AU2002314715B2 (en) 2006-07-27
EP1576183A4 (en) 2005-09-21
US20030054367A1 (en) 2003-03-20
EP1576183A2 (en) 2005-09-21
CA2438391A1 (en) 2002-10-10
JP2005507235A (en) 2005-03-17
KR20040054609A (en) 2004-06-25
US7299134B2 (en) 2007-11-20
CN1636068A (en) 2005-07-06
WO2002079491A2 (en) 2002-10-10

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